miRNA display CGI


Results 1 - 20 of 66 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
7240 3' -58.7 NC_001900.1 + 19048 0.66 0.54659
Target:  5'- aCUGGCAuccCGGCGcAGAcgcUGcCCGCGuCCGa -3'
miRNA:   3'- -GGCCGUu--GCCGC-UUU---ACcGGCGC-GGC- -5'
7240 3' -58.7 NC_001900.1 + 28312 0.66 0.54659
Target:  5'- uCCuGCuccCGGUGGAAUGaGCCGaGCCa -3'
miRNA:   3'- -GGcCGuu-GCCGCUUUAC-CGGCgCGGc -5'
7240 3' -58.7 NC_001900.1 + 47384 0.66 0.54659
Target:  5'- gCGGaguaGAcCGGCGGGacGUGGCCcuUGCCGa -3'
miRNA:   3'- gGCCg---UU-GCCGCUU--UACCGGc-GCGGC- -5'
7240 3' -58.7 NC_001900.1 + 45086 0.66 0.54032
Target:  5'- aCGGUGAUGGCcuucgaggugcccguGAGAccGGCCGCguucGCCGu -3'
miRNA:   3'- gGCCGUUGCCG---------------CUUUa-CCGGCG----CGGC- -5'
7240 3' -58.7 NC_001900.1 + 40585 0.66 0.536154
Target:  5'- gCGGUGACaGCcaGGAGUccucGGCCGCGuuGa -3'
miRNA:   3'- gGCCGUUGcCG--CUUUA----CCGGCGCggC- -5'
7240 3' -58.7 NC_001900.1 + 5327 0.66 0.536154
Target:  5'- gUCGGCGguggaACGGCaaGGAGUgGGUCGCGUg- -3'
miRNA:   3'- -GGCCGU-----UGCCG--CUUUA-CCGGCGCGgc -5'
7240 3' -58.7 NC_001900.1 + 31408 0.66 0.536154
Target:  5'- gUCGGcCAGCguGGUGAAcgcUGGCgucaGCGCCGu -3'
miRNA:   3'- -GGCC-GUUG--CCGCUUu--ACCGg---CGCGGC- -5'
7240 3' -58.7 NC_001900.1 + 10505 0.66 0.525787
Target:  5'- cUCGGCcuGCugGGCacGAUGGUCGaCGCCGa -3'
miRNA:   3'- -GGCCGu-UG--CCGcuUUACCGGC-GCGGC- -5'
7240 3' -58.7 NC_001900.1 + 6714 0.66 0.525787
Target:  5'- aUCGGCAacuaccccgcuGCGGCcuucccGAuGUGGCCGUcgGUCGa -3'
miRNA:   3'- -GGCCGU-----------UGCCG------CUuUACCGGCG--CGGC- -5'
7240 3' -58.7 NC_001900.1 + 25907 0.66 0.523723
Target:  5'- gCCGGCucaacGACGGUcuGGuccucgcccgGGCUGCGCCc -3'
miRNA:   3'- -GGCCG-----UUGCCG--CUuua-------CCGGCGCGGc -5'
7240 3' -58.7 NC_001900.1 + 24249 0.66 0.519604
Target:  5'- aCCGGCAGCGaugaGCGugccaccgcccgagaAGGUGGCUGUGgUGu -3'
miRNA:   3'- -GGCCGUUGC----CGC---------------UUUACCGGCGCgGC- -5'
7240 3' -58.7 NC_001900.1 + 38882 0.66 0.515498
Target:  5'- gCGGCucucuGCGGCccuGAUGGCCucaGCggagGCCGg -3'
miRNA:   3'- gGCCGu----UGCCGcu-UUACCGG---CG----CGGC- -5'
7240 3' -58.7 NC_001900.1 + 8923 0.66 0.515498
Target:  5'- gCGGCAGCGGUccugcuGGAcgcGGCUGCugGCCa -3'
miRNA:   3'- gGCCGUUGCCG------CUUua-CCGGCG--CGGc -5'
7240 3' -58.7 NC_001900.1 + 27021 0.66 0.515497
Target:  5'- gCGaCGAUGGCGAccGUGGCCcugaGCCGa -3'
miRNA:   3'- gGCcGUUGCCGCUu-UACCGGcg--CGGC- -5'
7240 3' -58.7 NC_001900.1 + 16440 0.66 0.49517
Target:  5'- gCC-GCGAUGGU--AGUGGCCGCGaaGa -3'
miRNA:   3'- -GGcCGUUGCCGcuUUACCGGCGCggC- -5'
7240 3' -58.7 NC_001900.1 + 19998 0.66 0.49517
Target:  5'- uUCGGCucccgaGGCc--GUGGUCGCGCUGc -3'
miRNA:   3'- -GGCCGuug---CCGcuuUACCGGCGCGGC- -5'
7240 3' -58.7 NC_001900.1 + 22750 0.66 0.49517
Target:  5'- aCCGGaugGACGcCGAAgcGUGGCuCGCGUCu -3'
miRNA:   3'- -GGCCg--UUGCcGCUU--UACCG-GCGCGGc -5'
7240 3' -58.7 NC_001900.1 + 21915 0.66 0.49517
Target:  5'- gCCa-CAACGGCGGAAUcGCCGCGaUCa -3'
miRNA:   3'- -GGccGUUGCCGCUUUAcCGGCGC-GGc -5'
7240 3' -58.7 NC_001900.1 + 4358 0.67 0.485144
Target:  5'- gUGGCAGCGGCcagc-GGCCugGCuGCCGc -3'
miRNA:   3'- gGCCGUUGCCGcuuuaCCGG--CG-CGGC- -5'
7240 3' -58.7 NC_001900.1 + 22817 0.67 0.485144
Target:  5'- gCCGGCcgAGC-GCGAGAagaaGGCUGCGgCGa -3'
miRNA:   3'- -GGCCG--UUGcCGCUUUa---CCGGCGCgGC- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.